#NEXUS [!This data set was downloaded from TreeBASE, a relational database of phylogenetic knowledge. TreeBASE has been supported by the NSF, Harvard University, Yale University, SDSC and UC Davis. Please do not remove this acknowledgment from the Nexus file. Generated on May 22, 2024; 22:17 GMT TreeBASE (cc) 1994-2008 Study reference: Bailey C., Hughes C., & Harris S. 2004. Using RAPDS to develop DNA sequence loci for species level phylogeny reconstruction: an example from Leucaena (Fabaceae). Systematic Botany, 29(1): 4-14. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S1034] BEGIN TAXA; TITLE TaxonLabelSet11225; DIMENSIONS NTAX=15; TAXLABELS Desmanthus_fruticosus Leucaena_collinsii_ssp._collinsi Leucaena_collinsii_ssp._zacapana Leucaena_cuspidata Leucaena_esculenta Leucaena_greggii Leucaena_lanceolata_var._sousae Leucaena_lempirana Leucaena_macrophylla_ssp._macrop Leucaena_matudae Leucaena_multicapitula Leucaena_pueblana Leucaena_pulverulenta Leucaena_retusa Leucaena_salvadorensis ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M129] TITLE ITS; LINK TAXA = TaxonLabelSet11225; DIMENSIONS NCHAR=676; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=? GAP= -; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360 370 380 390 400 410 420 430 440 450 460 470 480 490 500 510 520 530 540 550 560 570 580 590 600 610 620 630 640 650 660 670 680 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Desmanthus_fruticosus TCGATGCCCCTCAGGAA?GAGAGACCCGCGAACCGGTTGGCAGAATTACCGGGCGGGGAGGGGCCTCCGCGGAGGCCCCGCACCGCCCGCGCGCCGGGGCCGCGGCCT?CGC??????????????CGCCCCCGGCTCCAACAA?CCAATCCCGGCGCCCCAGGCGCCAAGGAAAAGCAACGAAGCGAGCGCGCCGCTGGGGGGCCCGGTTACGGACCCAGTGACCCAGCGTCGCGCCTTATGCGATTTGCATCCAGAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAAGCCATTAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCACCGCCCCCGCC?GGGGGCGTGGCGGATGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCAGCCGAAAAAGGGGCCCAACGTGACGACAGCCACGATCCACGGTGGATGAGTGAGCTA?CGTGCGCTCGAGACCG?GACGTGCGCTCGTCGTTCCACGC??TAGGGGCCCGAC?GCGCGGGGCCTCCGACAGGAGCGCCCCCGACTCGTACGGAAAAAAAAAAAAAAAGAAAAAGAGAGGGAAGAAAA Leucaena_collinsii_ssp._collinsi CCGATGCCCCGCGACAA?GAGCGACCCGTGAACCGGTTGGCATAAGCACCGGGCGGGGGGCGCCCC??????AGGCGTCCTCCCCCGCGCG??CCGTGGGCGCGGC????????????????????AGCCCTCGGCCCCAACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCACGCCGCTGGGCGGCCCGGGAACGGCGCCGGTGACCCAGCGTCGCGTCTCATGACATTTGCATCCGAAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATTAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCACCGCCCCTCCC?CGGGGCGCGGCGGAGGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAAAGGGGCCCAACGTGGCGACCGCCACGATCCACGGTGGATGAGTGAGCTG?CGCGCGCTCGAGGCCA?GGCGTGAGCGCGTCGTGCCACGG??CA?GGGTCCGGC?TCCCTGGGCCTCCGGGAGGAGCGCCCAAGACTCGTACGGAAAAG?A?AAAGAAAGAAAAAGAGAGGGAGGAAAA Leucaena_collinsii_ssp._zacapana CCGATGCCCCGCGACAA?GAGCGACCCGTGAACCGGTTGGCATAAGCACCGGGCGGGGGGCGCCCC??????AGGCGTCCTCCCCCGCGCG??CCGTGGGCGCGGC????????????????????AGCCCTCGGCCCCAACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCACGCCGCTGGGCGGCCCGGGAACGGCGCCGGTGACCCAGCGTCGCGTCTCATGACATTTGCATCCGAAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATTAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCACCGCCCCTCCC?CGGGGCGCGGCGGAGGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAAAGGGGCCCAACGTGGCGACCGCCACGATCCACGGTGGATGAGTGAGCTG?CGCGCGCTCGAGGCCA?GGCGTGAGCGCGTCGTGCCACGG??CA?GGGTCCGGC?TCCCTGGGCCTCCGGGAGGAGCGCCCAAGACTCGTACGGAAAAG?A?AAAGAAAGAAAAAGAGAGGGAGGAAAA Leucaena_cuspidata TCGATGCCCCGCAACAA?GAGCGACCCGCGAACCGGTTGGCAGAAGCACCGGGCG???????????????????????????????????????????????????????????CCGAGGGGGCCAAGCCCCCGGCCCCAACAAA?CGATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCACGCCGCTGGGCGGCCCGGGAACGGCGCCG?TGACCCAGCGTTGCGACTTATGACACTTGCATCCGAAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAAGCCATTAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCACCGCCCATCCC?ACGGGCGCGGCGGATGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAAAGGGGCCCAACGTGGCGACCGCCACGGTCCACGGTGGATGAGTGAGCTAACATGCGCTCGAGGCCA?GGCGTGAGCGCGTCGTGCCACGG??TA?GGGGCCGGC?TTCCGGGGCCCCCGGAGGGAGCGCCCCATACTCGTACGGG?????A???AAAAAAGAAAAGAGAAGGAGGAAAA Leucaena_esculenta CCGATGCCCCGCGAAAAAGAGAGACCCGCGAACCGGTTGGCACAAGCACCGGGCGGGGGGACGGCC???????????????????????????????????GCGGC?????????????????????GCCCCCGGCCCCAACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCACGCCGCTGGACGGCCCGGGAACGGCGCCGGTGACCCAGCGTCGCGTCTCATGACATTTGCATCCGAAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCGTCAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCGCCGCCCGTCCC?GCGGGCGCGGCGGATGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAAAGGGGCCCAACGTGGCGACCGCCACGATCCACGGTGGATGAGTGAGCTAACACGCGCTCGAGGCCA?GGCGTGAGCGCGTCGATCCACGG??CA?GGGTCCGGCCTCCG??????????????????GCCC?AGACTCGTACAGAAAG??A???A?GAAGAAAAAGAGAAGGAGAAAGG Leucaena_greggii TCGATGCCCCGCAACAA?GAGTGACCCGCGAACCGGTTGGCAGAAGCACCGGGCGGGGGGCC?????????????????????????????????????????????????????????????????GCCCCCGACCCCAACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCGCGCCGCTGGACGGCCCGGGAACGGTGCCGGTGACCCAGCGTCGCGTCTTA{AT}GGCATTTGCCACCAAAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCACCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATTAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCACCGCCCATCCC?ACGGGCGCGGCGGATGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAAAGGGGCCCAACGTGGCGACCGCCACGATCCACGGTGGATGAGTGAGCTA?CAGGCGCTCGAGGCCA?GGCGTGAGCGCGTCGTGCCACGGTACAAGGGGCCGGCAT?GCGGGGCCTCCTGCAGGAGCGCCCCAGACTCGTACGGAAA???A??AA??AAGAAAAAGAGAGGAAAAAGAA Leucaena_lanceolata_var._sousae CCGATGCCCCGCAACAA?GAGCGACCCGTGAACCGGTTGGCAGAAGC{AT}CCGGGCGGGTGGCGCCCC??????AGGCGTCCCCCCCCGCGCG??CCGTGGGCGCGG?????????????????????AGCC{CT}TCGGCCCCAACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCACGCCGTTGGGCGGCCCGGGAACGGCGCCGGTGACCCAGCGTCGCGTCTCATGACATTTGCATCCGAAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATTAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCACCGCCCCTCCA?CGGGGCGCGGCGGAGGATGGCTTCCCGGGAGCACCGTCTCCCGGCCTGCCGAAAAAGGGGCCCAACGTGGCGACCGCCACGATCCACGGTGGATGAGTGAGCTG?CGCGCGCTCGAGGCCA?GGCGTGAGCGCGTCGTGCCACGG??CA?GGGTCCGGC?TCCCTGGGCCTCCGGCAGGAGCGCCCAAGACTCGTACGGAAAAG?A?AAAGAAAGAAAAAGAGAGGGAGGAAAA Leucaena_lempirana CCGATGCCCCGAGACAA?GAGCGACCCGTGAACCGGTTGGCAGTAGCACCGGGCGGGGGGCGCCCC??????AGGCGTCCTCTCCCGCGGG??CCGTGGGCGCGGC????????????????????AGCCCTCGGCCCCAACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCGCGCCGCTGGGCGGCCCGGGAACGGCGCCGGTGACCCAGCGTCGCGCCTCATGAGATTTGCATCCGAAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATTAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCGCCGCCCCTCCC?CGGGGCGCGGCGGAGGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAAAGGGGCCCAACGTGGCGACCGCCACGATCCACGGTGGATGAGTGAGCTG?CGCGCGCTCGAGGCCA?GGCGTGAGCGCGTCGTGCCACGG??CA?GGGTCCGGC?TCCCTGGGGCTCCGGCAGGAGCGCCCAAGACTCGTACGGAAAAG?A?AAAGAAAGAAAAAGAGAGGGAGGAAAA Leucaena_macrophylla_ssp._macrop CCGATGCCCCGCGACAA?GAGCGACCCGTGAACCGGTTGGCATAAGCACCGGGCGGGGGGCGCCCC??????AGGCGTCCTCCCCCGCGCG??CCGTGGGCGCGGC????????????????????AGCCCTCGGCCCCAACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCACGCCGCTGGGCGGCCCGGGAACGGCGCCGGTGACCCAGCGTCGCGTCTCATGACATTTGCATCCGAAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATTAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCACCGCCCCTCCC?CGGGGCGCGGCGGAGGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAAAGGGGCCCAACGTGGCGACCGCCACGATCCACGGTGGATGAGTGAGCTG?CGCGCGCTCGAGGCCA?GGCGTGAGCGCGTCGTGCCACGG??CA?GGGTCCGTC?TCC{CT}TGGGCCTCCGGCAGGAGCGCCCAAGACTCGTACGGAAAAG?A?AAAGAAAGAAAAAGAGAGGGAGGAAAA Leucaena_matudae CCGATGCCCCGCGACAAAGAGAGACCCGCGAACCGGTTGGCACAAGCACCGGGCGGGGGGACGGCC???????????????????????????????????GCGGC?????????????????????GCCCCCGGCCCCAACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCACGCCGCTGGACGGCCCGGGAACGGCGCCGGTGACCCAGCGTCGCGTCTCATGACATTTGCATCCGAAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCG{AG}GGCCGTCAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCGCCGCCCGTCCC?GCGGGCGCGGCGGATGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAAAGGGGCCCAACGTGGCGACCGCCACGATCCACGGTGGATGAGTGAGCTAACACGCGCTCGAGGCCA?GG{AC}GTGAGCGCGTCGATCCACGG??CA?GGGTCCGGCCTCCG??????????????????GCCC?AGACTCGTACAGAAAG??A???A?GAAGAAAAAGAGAAGGAGAAAGG Leucaena_multicapitula CCGATGCCCCGCGACAA?GAGCGACCCGTGAACCGGTTGGCATAAGCACCGGGCGGGGGGCGCCCC??????AGGCGTCCTCCCCCGCGCG??CCGTGGGCGCGGC????????????????????AGCCCTCGGCCCCAACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCACGCCGCTGGGCGGCCCGGGAACGGCGCCGGTGACCCAGCGTCGCGTCTCATGACATTTGCATCCGAAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGC{AT}TCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATTAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCACCGCCCCTCCC?CGGGGCGCGGCGGAGGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAAAGGGGCCCAACGTGGCGACCGCCACGATCCACGGTGGATGAGTGAGCCG?CGCGCGCT{ACT}GAGGCCA?GGCGTGAGCGCGTCGTGCCACGG??CA?GGGTCCGGC?{CT}CCCTGGGC{CT}TCCGGCAGGAGCGCCCAAGACTCGTACGGAAAAG?A?AAAGAAAGAAAAAGAGAGGGAGGAAAA Leucaena_pueblana CCGATGCCCCGCGACAAAGAGAGACCCGCGAACCGGTTGGCACAAGCACCGGGCGGGGGGACGGCC???????????????????????????????????GCGGC?????????????????????GCCCCCG?CCCCAACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCACGCCGCTGGACGGCCCGGGAACGGCGCCGGTGACCCAGCGTCGCGTCTCATGACATTTGCATCCGAAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCGTCAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCGCCGCCCGTCCC?GCGGGCGCGGCGGATGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAAAGGGGCCCAACGTGGCGACCGCCACGATCCACGGTGGATGAGTGAGCTAACACGCGCTCGAGGCCA?GGCGTGAGCGCGTCGATCCACGG??CA?GGGTCCGGCCTCCG??????????????????GCCC?AGACTCGTACAGAAAG??A???A?GAGGAAAAAGAGAAGGAGAAAGG Leucaena_pulverulenta TCGATGCCCCGCAACAG?GAGTGACCCGCGAACCGGTTGGCAGAAGCACCGGGCGGGGGGCCGACG??????AGGCGCCCTCCCCCGCGCG??TCGCGGGCGCGGCCTGCGCTGACGCGGAGGCCCAGCCCC?GGCCCCAACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCGCGCCGCTGGACGGCCCGGGAACGGCGCCGGTGACCCAGCGTCGCGTCCTATGACATTTGCATCCGAAA?CGACTCCCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGACGCCATTAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAGCGTCGCCACCGCCCTTCCCCAGGGGCGCGGCGGATGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAGAGGGGCCCAACGTGGCGACCGCCACGAACCACGGTGGATGAGTGAGCTA?CAAGCGCTCGAG?CCAAGGCGTGAGCGCGTCGTGCCGCGGTGCAAGGGCCCGGCAT?????????????????????GCCC?AGA?CCGTACGGAAAAG?A?AAAAAGAGAAAAAGAAAGAAAAAG??G Leucaena_retusa TCGATGCCCCGCAACAA?GAGTGACCCGCGAACCGGTTGGCAGAAGCACCGGGCG??????????????????????????????????????CCGTGGGCGCGGCCTGCGCTGACGCGGAGGCCCAGCCCCCGGCCCCGACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCGCGCCGCTGGACGGCCCGGGAACGGTGCCGGCGGCCCAGCGCTGCGTCTCATGACATTTGCA?CCGAAAACGACTCTCGGCAACGGATATCTTGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGACGCCATTAGGCTGAGGGCACGTCTGCCTGGGTGTCACGCAGCGTCGCCGCCGCCCGTCCC?ACGGGCGCGGCGGATGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAATGGGGCCCAACGTGGCGACCGCCGCGATCCACGGTGGATGAGTGAGCCA?CAGGCGCTCGAGGCCA?GGCGTGAGCGCGTCGCGGCACGGTATA?GGGGCCGGCAT?GCGGGGCGTCCTGCAGGAGCGCCCCAGACTCGTACGGA??A??A??AAAAAAGAAAAAAAGAGGAAGAAGAA Leucaena_salvadorensis CCGATGCCCCGCGACAA?GAGCGACCCGTGAACCGGTTGGCATGAGCACCGGGCGGGGGGCGCCCC??????AGGCGTCCTCCCCCGCGCG??CCGTGGGCGCGGC????????????????????AGCCCTCGGCCCCAACAA?CCAATCCCGGCGCCGCAGGCGCCAAGGAAGAGCAACGAAGCGAGCACGCCGCTGGGCGGCCCGGGAACGGCGCCGGTGACCCAGCGTCGCGTCTCATGACATTTGCATCCGAAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATTAGGCCGAGGGCACGTCTGCCTGGGTGTCACGCAACGTCGCCACCGCCCCTCC??CGGGGCGCGGCGGAGGATGGCTTCCCGGGAGCCCCGTCTCCCGGCCTGCCGAAAAAGGGGCCCAACGTGGCGACCGCCACGATCCACGGTGGATGAGTGAGCTG?CGCGCGCTCGAGGCCA?GGCGTGAGCGCGTCGTGCCACGG??CA?GGGTCCGGC?TCCCTGGGCCTCCGGCAGGAGCGCCCAAGACTCGTACGGAAAAG?A?AAAGAAAGAAAAAGG?AGGGAGGAAAA ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = ITS) = N: 1-676; CODONPOSSET CodonPositions (CHARACTERS = ITS) = N: 1-676; END;